Analysis of interatomic Contacts of Structural Units in PDB entry:
5YDB


Contacts of Structural Units (CSU) are derived with the CSU software (Sobolev V., Sorokine A., Prilusky J., Abola E.E. and Edelman M. (1999) Automated analysis of interatomic contacts in proteins. Bioinformatics, 15, 327-332).
For CSU analysis of other PDB entry

This page provides analyses of contacts formed by:
For analysis of ligand-protein contacts, use: 3D structure can be seen in additional window with STING software for 5YDB entry

There are 4 chains in PDB entry 5YDB (CSU analysis of residue contacts immediately below table)
Chain ID Initial residueTerminal residue
A
 SER 3PRO 147
B
 SER 3PRO 147
C
 SER 3PRO 147
D
 SER 3PRO 147
Residue contacts

1. List of contacts for up to 10 consecutive residues:
Chain ID from residue number to residue number


2. Detailed analyses of contacts for any single residue:
Residue number chain ID
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There are 38 helices in PDB entry 5YDB. Click on helix of interest for CSU analysis.
Helix
number 		Helix
ID		Chain
ID		 Initial
residue		Terminal
residue		 Helix class
Helix 1
AA1
A
12 16Right-handed 310
Helix 2
AA2
A
28 43Right-handed alpha
Helix 3
AA3
A
54 68Right-handed alpha
Helix 4
AA4
A
77 83Right-handed 310
Helix 5
AA5
A
84 95Right-handed alpha
Helix 6
AA6
A
105 109Right-handed 310
Helix 7
AA7
A
110 115Right-handed 310
Helix 8
AA8
A
118 122Right-handed 310
Helix 9
AA9
A
131 146Right-handed alpha
Helix 10
AB1
B
12 16Right-handed 310
Helix 11
AB2
B
28 43Right-handed alpha
Helix 12
AB3
B
54 69Right-handed alpha
Helix 13
AB4
B
77 83Right-handed 310
Helix 14
AB5
B
84 95Right-handed alpha
Helix 15
AB6
B
105 109Right-handed 310
Helix 16
AB7
B
110 115Right-handed 310
Helix 17
AB8
B
118 122Right-handed 310
Helix 18
AB9
B
131 146Right-handed alpha
Helix 19
AC1
C
12 16Right-handed 310
Helix 20
AC2
C
20 25Right-handed alpha
Helix 21
AC3
C
28 43Right-handed alpha
Helix 22
AC4
C
54 68Right-handed alpha
Helix 23
AC5
C
77 83Right-handed 310
Helix 24
AC6
C
84 95Right-handed alpha
Helix 25
AC7
C
105 109Right-handed 310
Helix 26
AC8
C
110 115Right-handed 310
Helix 27
AC9
C
118 122Right-handed 310
Helix 28
AD1
C
131 146Right-handed alpha
Helix 29
AD2
D
12 16Right-handed 310
Helix 30
AD3
D
20 24Right-handed 310
Helix 31
AD4
D
28 43Right-handed alpha
Helix 32
AD5
D
54 69Right-handed alpha
Helix 33
AD6
D
77 83Right-handed 310
Helix 34
AD7
D
84 94Right-handed alpha
Helix 35
AD8
D
105 109Right-handed 310
Helix 36
AD9
D
110 115Right-handed 310
Helix 37
AE1
D
118 122Right-handed 310
Helix 38
AE2
D
131 146Right-handed alpha
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There are 2 sheets in PDB entry 5YDB. Click on sheet of interest to get list of strands forming it: AA1, AA2,

There are 10 strands in AA1 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
A
47 51first strand
Strand 2
A
5 9parallel
Strand 3
A
72 76parallel
Strand 4
A
98 102parallel
Strand 5
A
124 127parallel
Strand 6
B
125 127anti-parallel
Strand 7
B
98 102parallel
Strand 8
B
72 76parallel
Strand 9
B
5 9parallel
Strand 10
B
47 51parallel
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There are 10 strands in AA2 sheet. Click on strand of interest for CSU analysis.
Strand
number 		Chain
ID		 Initial
residue		Terminal
residue		 Strand sense
Strand 1
C
47 51first strand
Strand 2
C
5 9parallel
Strand 3
C
72 76parallel
Strand 4
C
98 102parallel
Strand 5
C
124 127parallel
Strand 6
D
124 127anti-parallel
Strand 7
D
98 102parallel
Strand 8
D
72 76parallel
Strand 9
D
5 9parallel
Strand 10
D
47 51parallel
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